ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
RNA-Seq

Sequence

atgc intronic sequence ATGC exonic sequence

CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgttttcagtacgttgtctataattctaagatattgttttgtttggttgaaacatcacctccaggcctactt...

Basic information

species	Zea mays
transcript	GRMZM2G053764_T03
intron #	5
splice site	5'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT5G41340.1 (Arabidopsis thaliana), 5'ss of exon 5

CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgtt---ttcagtacgttgtctataattctaagatattgttttgtttggttgaaacatcacctccaggcctactt--
|| |||||  | || |||||||| || || |||||||| ||||| || ||||| ||  | ||||||||||||||||||| |||||| ||   ||| |||||||     ||| ||| | || |||  |||      |  |  | | |    | || |||   |  ||  ||| | |  ||     ||   ||  | |     |   
CCTCAGCTTCTTCTGTATCCAAACCCATCAGATCCATTGAATGGAGAAGCTGCTGCGTTAATGATGCGTGATCGTCCTGCTTATGAGCAACGAGTTAAAGgta----agtcgactcagattctcatgttaagagatatatcaagattctgacaaatctgtta-gtttctttctctttttcttttatttgcttgatgtgaggtaca

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 5
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 5'ss of exon 5

CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgttttcagtacgttgtctataattctaagatattgttttgtttggttgaaacatcacctccaggcctactt
|| || ||  | || ||||| ||||| || |||||||| ||||| || || || ||| ||||||||||||||||||||   |||||||||| ||| ||||||    |  |    |   ||    |  |||||  |  ||| || |||            |||  | ||| | ||||  |                     
CCGCAACTTCTTCTGTATCCGAATCCGTCAGATCCATTGAATGGTGAAGCAGCTGCATTGATGATGCGTGATCGTCCTACCTATGAACAGAGAGTTAAAGgttagatattgagttg--attagattcttgttaccc-tacattatct------------tatcttcttgctcggtttcag--------------------

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv15s0046g02280.t01 (Vitis vinifera), 5'ss of exon 5

CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgttttcagtacgttgtctataattctaagatattgttttgtttggttgaaacatcacctccaggcctactt-----
|| || ||  |  | ||||| || || || |||||||||||||| ||||||||||| || ||||||||||| ||  ||| ||||||||| | ||| |||||||   || ||   |  ||   |||   | |    |  | | |  |  | |       ||    ||| |||  | |  | || |  | | | |  | ||      
CCGCAACTTCTTTTGTATCCCAACCCATCAGATCCATTAAATGGAGAGGCTGCAGCTCTAATGATGCGTGACCGAACTGCTTATGAACAAAGAGTTAAAGgtat--tgatcatgttcaacattctaaat-tcccaatcatgcttgccttgaaatgccaatgcc-tttggttaaggtctaccaacttc-ctatgattgctccaata

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 5
lower sequence: Vv02s0025g00070.t01 (Vitis vinifera), 5'ss of exon 5

CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggtccactaaaatcctctggttgttttcagtacgt-tgtcta-taattctaagatattgttttgtttggttgaaacatcacctccaggcctactt-
|| || ||  | || || || || || || |||||||| ||||| ||||||||||| ||||||||||| ||||| |||| ||||||||| | |||||||||||  |  ||||     || | ||| ||       ||||| | ||| || | ||     |  |   |    |   | |||| | |||  |        | |  
CCTCAACTTCTTCTCTACCCCAACCCATCAGATCCATTGAATGGAGAGGCTGCAGCCCTGATGATGCGAGATCGGCCTGCTTATGAACAAAGAGTGAAAGgta--gcagtccttctcaagcttctagtc-cccatagtacatatgtttactcataaggtggcaagatcaaataatggtgaatcttcaagtggtacttcattca

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|47961920|gb|CN844629.1|CN844629

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|5713918|gb|AI943903.1|AI943903

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|60396538|gb|DN229407.1|DN229407

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|5649980|gb|AI920340.1|AI920340

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|1337735|gb|W49441.1|W49441

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|5895766|gb|AW037012.1|AW037012

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|60355507|gb|DN222480.1|DN222480

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|5608383|gb|AI901960.1|AI901960

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|5917370|gb|AW054161.1|AW054161

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|87156694|gb|DY401483.1|DY401483

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|6022600|gb|AW067412.1|AW067412

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGGGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|22715330|gb|BU197707.1|BU197707

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|12968800|gb|BG265836.1|BG265836

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

EST: gi|113551844|gb|DW724990.1|DW724990

EST:     GCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAAG                         AATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGG
genomic: GCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAA-Ggtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGG

EST: gi|26559585|gb|CA831820.1|CA831820

EST:     TGCAGCACTGATGATGCGTGATCGTCCTGTTTACGAACAGAAAGTGAAAG                         AATATTGTGAAAAGTATGCCAAACCAGAGGACGCTGGCATCACTCCGGAAG
genomic: TGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAG

RNA-Seq data

ATGC Supported by RNA-Seq exonic block that spans over the splice site

atgs Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.

Found data for 4 RNA-Seq libraries.

Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 17

CCACAGCTGTTACTATATCCAAATCCTTCTGATCCATTAAATGGGGAGGCTGCAGCACTGATGATGCGTGATCGTCCTGTTTATGAACAGAAAGTGAAAGgtacagtggt ... gtttctgcagAATATTGTGAGAAGTATGCCAAACCAGAGGACGCTGGTATCACTCCGGAAGACAAGTCCAGTGATGAAGAGCTTAGCGAGGAGGAAGACGACTCCGGTGA

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 111

Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 99